TB-Profiler result

Run: SRR13837660
Summary

Run ID: SRR13837660

Sample name:

Date: 2024-10-05T08:58:11.628485

Number of reads: 298094

Percentage reads mapped: 96.38

Median coverage: 10.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4 Euro-American None 1.0
lineage4.9 Euro-American (H37Rv-like) None 1.0
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin
isoniazid
ethambutol
pyrazinamide
streptomycin
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence Comment
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence
gyrA 7837 p.Gly179Val missense_variant 1.0 levofloxacin
moxifloxacin
rpoB 762257 c.2451C>G synonymous_variant 1.0 rifampicin
mmpL5 777730 p.Gly251Arg missense_variant 1.0 bedaquiline
clofazimine
sigE 1364580 p.Asp56Glu missense_variant 1.0 pyrazinamide
tlyA 1917613 c.-327G>T upstream_gene_variant 1.0 capreomycin
bacA 2064771 c.-44delG upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
ndh 2102259 p.Ser262Ala missense_variant 1.0 isoniazid
delamanid
ethionamide
katG 2156260 c.-149C>A upstream_gene_variant 1.0 isoniazid
PPE35 2169123 p.Thr497Ile missense_variant 1.0 pyrazinamide
Rv2752c 3066145 p.Leu16Ser missense_variant 1.0 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv3236c 3612326 p.Thr264Ile missense_variant 1.0 pyrazinamide
Rv3236c 3612504 p.His205Tyr missense_variant 1.0 pyrazinamide
Rv3236c 3612779 p.Leu113* stop_gained 1.0 pyrazinamide Uncertain significance
lpqB 3624635 c.275_276insT frameshift_variant 1.0 rifampicin Uncertain significance
bedaquiline
fbiB 3640821 c.-714G>C upstream_gene_variant 1.0 pretomanid
delamanid
clofazimine
rpoA 3878543 c.-36G>C upstream_gene_variant 1.0 rifampicin
embB 4248562 c.2049G>C synonymous_variant 1.0 ethambutol